Wikipedia

Recurrent evolution

Recurrent evolution also referred to as repeated [1][2] or replicated[3] evolution is the repeated evolution of a particular trait, character, or mutation.[4] Most evolution is the result of drift, often interpreted as the random chance of some alleles being passed down to the next generation and others not. Recurrent evolution is said to occur when patterns emerge from this stochastic process when looking across multiple distinct populations. These patterns are of particular interest to evolutionary biologists, as they can demonstrate the underlying forces governing evolution.

Recurrent evolution is a broad term, but it is usually used to describe recurring regimes of selection within or across lineages.[5] While most commonly used to describe recurring patterns of selection, it can also be used to describe recurring patterns of mutation; for example, transitions are more common than transversions.[5] The concept encompasses both convergent evolution and parallel evolution; it can be used to describe the observation of similar repeating changes through directional selection as well as the observation of highly conserved phenotypes or genotypes across lineages through continuous purifying selection over large periods of evolutionary time.[5]

Phenotypic vs. genotypic levels

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Recurrent changes may be observed at the phenotype level or the genotype level. At the phenotype level, recurrent evolution can be observed across a continuum of levels, which for simplicity can be broken down into molecular phenotype, cellular phenotype, and organismal phenotype. At the genotype level, recurrent evolution can only be detected using DNA sequencing data. The same or similar sequences appearing in the genomes of different lineages indicates recurrent genomic evolution may have taken place. Recurrent genomic evolution can also occur within a lineage; an example of this would include some types of phase variation that involve highly directed changes at the DNA sequence level. The evolution of different forms of phase variation in separate lineages represents convergent and recurrent evolution toward increased evolvability. In organisms with long generation times, any potential recurrent genomic evolution within a lineage would be difficult to detect. Recurrent evolution has been studied most extensively at the organismal level, but with the advent of cheaper and faster sequencing technologies more attention is being paid to recurrent evolution at the genomic level.

Convergent, parallel, and recurrent evolution

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The distinction between convergent and parallel evolution is somewhat unresolved in evolutionary biology. Some authors have claimed it is a false dichotomy, while others have argued that there are important distinctions.[6][7][8][9][10] These debates are important when considering recurrent evolution because the basis for the distinction is in the degree of phylogenetic relatedness among the organisms being considered. While convergent and parallel evolution can both be interpreted as forms of recurrent evolution, they involve multiple lineages whereas recurrent evolution can also take place within a single lineage.[5][11]

As mentioned before, recurrent evolution within a lineage can be difficult to detect in organisms with long generation times; however, paleontological evidence can be used to show recurrent phenotypic evolution within a lineage.[11] The distinction between recurrent evolution across lineages and recurrent evolution within a lineage can be blurred because lineages do not have a set size and convergent or parallel evolution takes place among lineages that are all part of or within the same greater lineage. When speaking of recurrent evolution within a lineage, the simplest example is that given above, of the "on-off switch" used by bacteria in phase variation, but it can also involve phenotypic swings back and forth over longer periods of evolutionary history.[11] These may be caused by environmental swings – for example, natural fluctuations in the climate, or a pathogenic bacterium moving between hosts – and represent the other major source of recurrent evolution.[11] Recurrent evolution caused by convergent and parallel evolution, and recurrent evolution caused by environmental swings, are not necessarily mutually exclusive. If the environmental swings have the same effect on the phenotypes of different species, they could potentially evolve in parallel back and forth together through each swing.

Examples

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At the phenotypic level

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On the island of Bermuda, the shell size of the land snail Poecilozonites has increased during glacial periods and shrunk again during warmer periods. It has been proposed that this is due to the increased size of the island during glacial periods (as a consequence of lower sea levels), which results in more large vertebrate predators and creates a selection pressure for larger shell size in the snails.[11]

In eusocial insects, new colonies are usually formed by a solitary queen, though this is not always the case. Dependent colony formation, when new colonies are formed by more than one individual, has evolved recurrently multiple times in ants, bees, and wasps.[12]

Recurrent evolution of polymorphisms in colonial invertebrate bryozoans of the order Cheilostomatida has given rise to zooid polymorphs and certain skeletal structures several times in evolutionary history.[13]

Neotropical tanagers of the genera Diglossa and Diglossopis, known as flowerpiercers, have undergone recurrent evolution of divergent bill types.[14]

There is evidence for at least 133 transitions between dioecy and hermaphroditism in the sexual systems of bryophytes. Additionally, the transition rate from hermaphroditism to dioecy was approximately twice the rate in the reverse direction, suggesting greater diversification among hermaphrodites and demonstrating the recurrent evolution of dioecy in mosses.[15]

C4 photosynthesis has evolved over 60 times in different plant lineages.[16] This has occurred through the repurposing of genes present in a C3 photosynthetic common ancestor, altering levels and patterns of gene expression, and adaptive changes in the protein-coding region.[16] Recurrent lateral gene transfer has also played a role in optimizing the C4 pathway by providing better adapted C4 genes to the plants.[16]

At the genotypic level

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Certain genetic mutations occur with measurable and consistent frequency.[17] Deleterious and neutral alleles can increase in frequency if the mutation rate to this phenotype is sufficiently higher than the reverse mutation rate; however, this appears to be rare. Beyond creating new genetic variation for selection to act upon, mutations plays a primary role in evolution when mutations in one direction are "weeded out by natural selection" and mutations in the other direction are neutral.[17] This is known as purifying selection when it acts to maintain functionally important characters but also results in the loss or diminished size of useless organs as the functional constraint is lifted. An example of this is the diminished size of the Y chromosome in mammals, which can be attributed to recurrent mutations and recurrent evolution.[17]

The existence of mutational "hotspots" within the genome often gives rise to recurrent evolution. Hotspots can arise at certain nucleotide sequences because of interactions between the DNA and DNA repair, replication, and modification enzymes.[18] These sequences can act like fingerprints to help researchers locate mutational hotspots.[18]

Cis-regulatory elements are frequent targets of evolution resulting in varied morphology.[19] When looking at long-term evolution, mutations in cis-regulatory regions appear to be even more common.[20] In other words, more interspecific morphological differences are caused by mutations in cis-regulatory regions than intraspecific differences.[19]

Across Drosophila species, highly conserved blocks not only in the histone fold domain but also in the N-terminal tail of centromeric histone H3 (CenH3) demonstrate recurrent evolution by purifying selection. In fact very similar oligopeptides in the N-terminal tails of CenH3 have also been observed in humans and in mice.[21]

Many divergent eukaryotic lineages have recurrently evolved highly AT-rich genomes.[5] GC-rich genomes are rarer among eukaryotes, but when they evolve independently in two different species the recurrent evolution of similar preferential codon usages will usually result.[5]

"Generally, regulatory genes occupying nodal position in gene regulatory networks, and which function as morphogenetic switches, can be anticipated to be prime targets for evolutionary changes and therefore repeated evolution."[22]

See also

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References

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  1. ^ Bohutínská, Magdalena; Peichel, Catherine L. (April 2024). "Divergence time shapes gene reuse during repeated adaptation". Trends in Ecology & Evolution. 39 (4): 396–407. Bibcode:2024TEcoE..39..396B. doi:10.1016/j.tree.2023.11.007. PMID 38155043.
  2. ^ Cerca, José (October 2023). "Understanding natural selection and similarity: Convergent, parallel and repeated evolution". Molecular Ecology. 32 (20): 5451–5462. Bibcode:2023MolEc..32.5451C. doi:10.1111/mec.17132. PMID 37724599.
  3. ^ James, Maddie E.; Brodribb, Tim; Wright, Ian J.; Rieseberg, Loren H.; Ortiz-Barrientos, Daniel (22 May 2023). "Replicated Evolution in Plants". Annual Review of Plant Biology. 74 (1): 697–725. doi:10.1146/annurev-arplant-071221-090809. PMID 36608349.
  4. ^ Cerca, José (October 2023). "Understanding natural selection and similarity: Convergent, parallel and repeated evolution". Molecular Ecology. 32 (20): 5451–5462. Bibcode:2023MolEc..32.5451C. doi:10.1111/mec.17132. PMID 37724599.
  5. ^ a b c d e f Maeso, I.; Roy, S. W.; Irimia, M. (13 March 2012). "Widespread Recurrent Evolution of Genomic Features". Genome Biology and Evolution. 4 (4): 486–500. doi:10.1093/gbe/evs022. PMC 3342872. PMID 22417916.
  6. ^ ARENDT, J; REZNICK, D (January 2008). "Convergence and parallelism reconsidered: what have we learned about the genetics of adaptation?". Trends in Ecology & Evolution. 23 (1): 26–32. Bibcode:2008TEcoE..23...26A. doi:10.1016/j.tree.2007.09.011. PMID 18022278.
  7. ^ Scotland, Robert W. (March 2011). "What is parallelism?". Evolution & Development. 13 (2): 214–227. doi:10.1111/j.1525-142X.2011.00471.x. PMID 21410877. S2CID 866078.
  8. ^ LEANDER, B (September 2008). "Different modes of convergent evolution reflect phylogenetic distances: a reply to Arendt and Reznick". Trends in Ecology & Evolution. 23 (9): 481–482. Bibcode:2008TEcoE..23..481L. doi:10.1016/j.tree.2008.04.012. PMID 18657879.
  9. ^ Pearce, T. (10 November 2011). "Convergence and Parallelism in Evolution: A Neo-Gouldian Account". The British Journal for the Philosophy of Science. 63 (2): 429–448. doi:10.1093/bjps/axr046.
  10. ^ Cerca, José (October 2023). "Understanding natural selection and similarity: Convergent, parallel and repeated evolution". Molecular Ecology. 32 (20): 5451–5462. Bibcode:2023MolEc..32.5451C. doi:10.1111/mec.17132. PMID 37724599.
  11. ^ a b c d e Olson, S. L.; Hearty, P. J. (16 June 2010). "Predation as the primary selective force in recurrent evolution of gigantism in Poecilozonites land snails in Quaternary Bermuda". Biology Letters. 6 (6): 807–810. doi:10.1098/rsbl.2010.0423. PMC 3001380. PMID 20554560.
  12. ^ Cronin, Adam L.; Molet, Mathieu; Doums, Claudie; Monnin, Thibaud; Peeters, Christian (7 January 2013). "Recurrent Evolution of Dependent Colony Foundation Across Eusocial Insects". Annual Review of Entomology. 58 (1): 37–55. doi:10.1146/annurev-ento-120811-153643. PMID 22934981.
  13. ^ Lidgard, Scott; Carter, Michelle C.; Dick, Matthew H.; Gordon, Dennis P.; Ostrovsky, Andrew N. (18 August 2011). "Division of labor and recurrent evolution of polymorphisms in a group of colonial animals". Evolutionary Ecology. 26 (2): 233–257. doi:10.1007/s10682-011-9513-7. S2CID 6067966.
  14. ^ MAUCK III, WILLIAM M.; BURNS, KEVIN J. (25 August 2009). "Phylogeny, biogeography, and recurrent evolution of divergent bill types in the nectar-stealing flowerpiercers (Thraupini: Diglossa and Diglossopis)". Biological Journal of the Linnean Society. 98 (1): 14–28. doi:10.1111/j.1095-8312.2009.01278.x.
  15. ^ McDaniel, Stuart F.; Atwood, John; Burleigh, J. Gordon (February 2013). "Recurrent Evolution of Dioecy in Bryophytes". Evolution. 67 (2): 567–572. doi:10.1111/j.1558-5646.2012.01808.x. PMID 23356627. S2CID 205784126.
  16. ^ a b c Christin, Pascal-Antoine; Edwards, Erika J.; Besnard, Guillaume; Boxall, Susanna F.; Gregory, Richard; Kellogg, Elizabeth A.; Hartwell, James; Osborne, Colin P. (March 2012). "Adaptive Evolution of C4 Photosynthesis through Recurrent Lateral Gene Transfer". Current Biology. 22 (5): 445–449. doi:10.1016/j.cub.2012.01.054. PMID 22342748.
  17. ^ a b c Haldane, J. B. S. (Jan–Feb 1933). "The part played by Recurrent Mutation in Evolution". The American Naturalist. 67 (708): 5–19. doi:10.1086/280465. JSTOR 2457127. S2CID 84059440.
  18. ^ a b Rogozin, IB; Pavlov, YI (September 2003). "Theoretical analysis of mutation hotspots and their DNA sequence context specificity". Mutation Research. 544 (1): 65–85. Bibcode:2003MRRMR.544...65R. doi:10.1016/s1383-5742(03)00032-2. PMID 12888108.
  19. ^ a b Stern, David L.; Orgogozo, Virginie (September 2008). "The Loci of Evolution: How Predictable is Genetic Evolution?". Evolution. 62 (9): 2155–2177. doi:10.1111/j.1558-5646.2008.00450.x. PMC 2613234. PMID 18616572.
  20. ^ Stern, D. L.; Orgogozo, V. (6 February 2009). "Is Genetic Evolution Predictable?". Science. 323 (5915): 746–751. Bibcode:2009Sci...323..746S. doi:10.1126/science.1158997. PMC 3184636. PMID 19197055.
  21. ^ Malik, H. S.; Vermaak, D.; Henikoff, S. (22 January 2002). "Recurrent evolution of DNA-binding motifs in the Drosophila centromeric histone". Proceedings of the National Academy of Sciences. 99 (3): 1449–1454. Bibcode:2002PNAS...99.1449M. doi:10.1073/pnas.032664299. PMC 122211. PMID 11805302.
  22. ^ Gompel, Nicolas; Prud'homme, Benjamin (August 2009). "The causes of repeated genetic evolution". Developmental Biology. 332 (1): 36–47. doi:10.1016/j.ydbio.2009.04.040. PMID 19433086.
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